Canít figure this outóreceive 2 QT movie (720x480, DV/DVCPRO-NTSC). They were long author interview which needed to be edited down to smaller clips and then given to my co-worker to put in to flash. The co-worker and I split up the movies (he is working in After Effects). I brought the move in to FCP did my edits and transitions to clips. I was ask to out put as MGEG-4 files.
I exported as a QT move, setting as custom, compressor MPEG-4 Video, 640x480, NTSC (4:3), editing timebase 29.97, Quality 75%. The co-worker used the same setting in AF.

When I open up the MPEG-4 finished files from FCP they looked fine, but when ever I move the the starting point of the movie to a different location in the movie it would take a couple of minutes to catch up before playing and then the sound was out of seek the video had strange art effects appearing. The out put from AE my co-worker did were fine, didnít have these problems.

The thing about MPEG4 is that there are various ISMA profiles that affect the CODEC that is used. I've had sync problems in the past on long clips. Attached is a screen shot one of the Apple Presets from Compressor that you may want to try or at least start with (if you didn't already).

Also, if you mistakenly set it to add streaming information, you don't need that. It's for streaming server use.